Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000001

Orthogroup ID

OG0005055

Physical Location & Seq

Genomic Coordinates Reverse (-)

86091084 .. 86093158

Gene Structure 2075 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_1G00064260.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 555 bp

ATGGCTTCCACCACCCCAGAAAAGCACGTCTATTCCGTGTGGGCGCTTCCACCGGACAACGTGACCCCCAGGCTCAAGAAGCTCATGGAGGGCCTCCGAGCCGAGTTCAACGGGCCCTACTTCGACCCCCACATCACCGTCGTGGGGGCCATCACCTTGACCCCCGAAGACGCTCTCAACAAGTTTAAATCGGCCTCGCAGGCCGTGAAGGCCTACGAAGCCAAAGTTGAGAGCGTCGCCACCGGAACTTTCTTTTACCAGTGTGTGTTCCTCCTCATCAATCCCGCCCCTCAGGTGGTGGAAGCTAGTGCAAGCTGCTGTGGGCATTTTGGTTACAATAGCTCGACTCCTTATATGCCACATCTGAGTCTCCTGTACGCAGATCTGAGTGATGAAGATAAGAAAAAAGCTCAAGAGAAAGCCAGCATTCTGGACGAGAGCATTGCTAGTCTGAGCTTCCCCGTTACTCGCCTTGCATTGTACAAAACTGACACTGAAGATAAAACTCTCAAATCTTGGGAGAAGATTGCTGAGTGCACACTCCAACCCAATTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000394 GO:0003674 GO:0003824 GO:0004112 GO:0004113 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006139 GO:0006388 GO:0006396 GO:0006399 GO:0006725 GO:0006753 GO:0006793 GO:0006796 GO:0006807 GO:0008033 GO:0008081 GO:0008150 GO:0008152 GO:0008380 GO:0009117 GO:0009187 GO:0009987 GO:0010467 GO:0016070 GO:0016787 GO:0016788 GO:0019637 GO:0034470 GO:0034641 GO:0034660 GO:0042578 GO:0043170 GO:0044237 GO:0044238 GO:0044281 GO:0044424 GO:0044464 GO:0046483 GO:0055086 GO:0071704 GO:0090304 GO:1901360

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

2_5_RNA_ligase2 CPDase

Protein Analysis

184

Amino Acids

20.33

Weight (kDa)

5.58

Isoelectric Point (pI)

39.01

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
CPDase	PF07823	12 - 147	3.1e-11	Cyclic phosphodiesterase-like protein
2_5_RNA_ligase2	PF13563	42 - 165	9.7e-10	2'-5' RNA ligase superfamily

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0005055)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G18930
fragaria_vesca	FvH4_3g06750 FvH4_3g06750 FvH4_3g06750 FvH4_6g06860 FvH4_6g06860
malus_domestica	MD10G1271200.v1.1 MD10G1271300.v1.1
prunus_persica	Prupe.4G070300_v2.0.a1 Prupe.6G318900_v2.0.a1
pyrus_communis	pycom10g22700
rosa_chinensis	RchiOBHm_Chr3g0456341 RchiOBHm_Chr5g0012411
rosa_laevigata	RLG00000025311 RLG00000031911
rosa_multiflora	Rmu_co8444057.1_g000001 Rmu_sc0002607.1_g000022 Rmu_sc0018054.1_g000004
rosa_roxburghii	Rroxscaffold_1G00064260 Rroxscaffold_6G00422810
rosa_rugosa	Rorug05G0000900
rosa_samantha	Rh3AG072700 Rh3BG074800 Rh3CG074400 Rh5AG095400 Rh5AG499800 Rh5BG091600 Rh5DG091000
rosa_wichuraiana	Rw3G006240 Rw5G008340

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	1 cut(s)	285
AcuI	CTGAAG	1 cut(s)	516
AfaI	GTAC	2 cut(s)	377, 482
AfiI	CCNNNNNNNGG	2 cut(s)	144, 295
AgsI	TTSAA	1 cut(s)	109
AjiI	CACGTC	1 cut(s)	28
AjnI	CCWGG	1 cut(s)	68
AleI	CACNNNNGTG	1 cut(s)	140
AluBI	AGCT	6 cut(s)	82, 305, 315, 342, 410, 456
AluI	AGCT	6 cut(s)	82, 305, 315, 342, 410, 456
Alw21I	GWGCWC	1 cut(s)	539
Alw26I	GTCTC	1 cut(s)	374
Alw44I	GTGCAC	1 cut(s)	535
AoxI	GGCC	6 cut(s)	91, 113, 147, 192, 201, 210
ApaI	GGGCCC	1 cut(s)	117
ApaLI	GTGCAC	1 cut(s)	535
ApeKI	GCWGC	1 cut(s)	315
AspLEI	GCGC	1 cut(s)	46
AspS9I	GGNCC	4 cut(s)	91, 113, 114, 147
AsuHPI	GGTGA	2 cut(s)	127, 145
AxyI	CCTNAGG	1 cut(s)	291
BaeGI	GKGCMC	2 cut(s)	117, 539
BanII	GRGCYC	1 cut(s)	117
BbsI	GAAGAC	1 cut(s)	174
Bbv12I	GWGCWC	1 cut(s)	539
BbvI	GCAGC	1 cut(s)	302
BccI	CCATC	1 cut(s)	158
BceAI	ACGGC	1 cut(s)	188
BcgI	CGANNNNNNTGC	2 cut(s)	425, 459
BciT130I	CCWGG	1 cut(s)	70
BcoDI	GTCTC	1 cut(s)	374
BfaI	CTAG	2 cut(s)	306, 447
BfoI	RGCGCY	1 cut(s)	47
BglI	GCCNNNNNGGC	2 cut(s)	200, 209
BglII	AGATCT	1 cut(s)	382
BisI	GCNGC	1 cut(s)	316
BlsI	GCNGC	1 cut(s)	317
Bme1390I	CCNGG	1 cut(s)	70
BmgBI	CACGTC	1 cut(s)	28
BmgT120I	GGNCC	4 cut(s)	91, 113, 114, 147
BmiI	GGNNCC	2 cut(s)	115, 148
BmrFI	CCNGG	1 cut(s)	70
BpiI	GAAGAC	1 cut(s)	174
BpuEI	CTTGAG	2 cut(s)	59, 396
BsaJI	CCNNGG	1 cut(s)	68
BsaWI	WCCGGW	2 cut(s)	52, 242
Bsc4I	CCNNNNNNNGG	2 cut(s)	144, 295
Bse1I	ACTGG	1 cut(s)	259
Bse21I	CCTNAGG	1 cut(s)	291
Bse3DI	GCAATG	1 cut(s)	441
BseBI	CCWGG	1 cut(s)	70
BseDI	CCNNGG	1 cut(s)	68
BseLI	CCNNNNNNNGG	2 cut(s)	144, 295
BseMI	GCAATG	1 cut(s)	441
BseMII	CTCAG	5 cut(s)	305, 356, 377, 443, 522
BseNI	ACTGG	1 cut(s)	259
BseRI	GAGGAG	1 cut(s)	263
BseSI	GKGCMC	2 cut(s)	117, 539
BseXI	GCAGC	1 cut(s)	302
BshFI	GGCC	6 cut(s)	93, 115, 149, 194, 203, 212
BsiHKAI	GWGCWC	1 cut(s)	539
BsiSI	CCGG	2 cut(s)	53, 243
BslI	CCNNNNNNNGG	2 cut(s)	144, 295
BsmAI	GTCTC	1 cut(s)	374
BsmI	GAATGC	1 cut(s)	426
BsnI	GGCC	6 cut(s)	93, 115, 149, 194, 203, 212
Bsp120I	GGGCCC	1 cut(s)	113
Bsp1286I	GDGCHC	2 cut(s)	117, 539
Bsp1407I	TGTACA	1 cut(s)	480
Bsp143I	GATC	1 cut(s)	382
BspACI	CCGC	1 cut(s)	285
BspANI	GGCC	6 cut(s)	93, 115, 149, 194, 203, 212
BspCNI	CTCAG	5 cut(s)	304, 357, 378, 444, 523
BspLI	GGNNCC	2 cut(s)	115, 148
BsrDI	GCAATG	1 cut(s)	441
BsrGI	TGTACA	1 cut(s)	480
BsrI	ACTGG	1 cut(s)	259
BssECI	CCNNGG	1 cut(s)	68
BssMI	GATC	1 cut(s)	382
Bst2UI	CCWGG	1 cut(s)	70
Bst4CI	ACNGT	1 cut(s)	139
BstAUI	TGTACA	1 cut(s)	480
BstC8I	GCNNGC	3 cut(s)	201, 313, 424
BstDEI	CTNAG	5 cut(s)	291, 365, 386, 452, 531
BstH2I	RGCGCY	1 cut(s)	47
BstHHI	GCGC	1 cut(s)	46
BstKTI	GATC	1 cut(s)	385
BstMAI	GTCTC	1 cut(s)	374
BstMBI	GATC	1 cut(s)	382
BstMWI	GCNNNNNNNGC	4 cut(s)	79, 200, 209, 218
BstNI	CCWGG	1 cut(s)	70
BstSCI	CCNGG	1 cut(s)	68
BstSLI	GKGCMC	2 cut(s)	117, 539
BstV1I	GCAGC	1 cut(s)	302
BstV2I	GAAGAC	1 cut(s)	174
BstX2I	RGATCY	1 cut(s)	382
BstXI	CCANNNNNNTGG	1 cut(s)	430
BstYI	RGATCY	1 cut(s)	382
Bsu36I	CCTNAGG	1 cut(s)	291
BsuRI	GGCC	6 cut(s)	93, 115, 149, 194, 203, 212
BtrI	CACGTC	1 cut(s)	28
BtsIMutI	CAGTG	2 cut(s)	266, 492
Cac8I	GCNNGC	3 cut(s)	201, 313, 424
CfoI	GCGC	1 cut(s)	46
Cfr13I	GGNCC	4 cut(s)	91, 113, 114, 147
CseI	GACGC	2 cut(s)	179, 223
Csp6I	GTAC	2 cut(s)	376, 481
CviAII	CATG	1 cut(s)	85
CviQI	GTAC	2 cut(s)	376, 481
DdeI	CTNAG	5 cut(s)	291, 365, 386, 452, 531
DpnI	GATC	1 cut(s)	384
DpnII	GATC	1 cut(s)	382
DraI	TTTAAA	1 cut(s)	187
Eco147I	AGGCCT	1 cut(s)	212
Eco24I	GRGCYC	1 cut(s)	117
Eco57I	CTGAAG	1 cut(s)	516
Eco81I	CCTNAGG	1 cut(s)	291
EcoO109I	RGGNCCY	2 cut(s)	91, 114
EcoRII	CCWGG	1 cut(s)	68
EcoT38I	GRGCYC	1 cut(s)	117
FaeI	CATG	1 cut(s)	88
FaiI	YATR	3 cut(s)	86, 354, 356
FatI	CATG	1 cut(s)	84
FauI	CCCGC	1 cut(s)	292
Fnu4HI	GCNGC	1 cut(s)	316
FriOI	GRGCYC	1 cut(s)	117
Fsp4HI	GCNGC	1 cut(s)	316
FspBI	CTAG	2 cut(s)	306, 447
GlaI	GCGC	1 cut(s)	45
GluI	GCNGC	1 cut(s)	316
HaeII	RGCGCY	1 cut(s)	47
HaeIII	GGCC	6 cut(s)	93, 115, 149, 194, 203, 212
HapII	CCGG	2 cut(s)	53, 243
HgaI	GACGC	2 cut(s)	179, 223
HhaI	GCGC	1 cut(s)	46
Hin1II	CATG	1 cut(s)	88
Hin6I	GCGC	1 cut(s)	44
HinP1I	GCGC	1 cut(s)	44
HinfI	GANTC	2 cut(s)	346, 367
HpaII	CCGG	2 cut(s)	53, 243
HphI	GGTGA	2 cut(s)	127, 145
Hpy166II	GTNNAC	1 cut(s)	537
Hpy188I	TCNGA	4 cut(s)	98, 366, 387, 453
Hpy188III	TCNNGA	3 cut(s)	76, 413, 431
Hpy8I	GTNNAC	1 cut(s)	537
Hpy99I	CGWCG	2 cut(s)	143, 239
HpyAV	CCTTC	1 cut(s)	202
HpyCH4III	ACNGT	1 cut(s)	139
HpyCH4IV	ACGT	2 cut(s)	27, 60
HpyCH4V	TGCA	3 cut(s)	311, 476, 537
HpyF10VI	GCNNNNNNNGC	4 cut(s)	79, 200, 209, 218
HpyF3I	CTNAG	5 cut(s)	291, 365, 386, 452, 531
HpySE526I	ACGT	2 cut(s)	27, 60
Hsp92II	CATG	1 cut(s)	88
HspAI	GCGC	1 cut(s)	44
Kzo9I	GATC	1 cut(s)	382
Lsp1109I	GCAGC	1 cut(s)	302
MaeI	CTAG	2 cut(s)	306, 447
MaeII	ACGT	2 cut(s)	27, 60
MaeIII	GTNAC	3 cut(s)	61, 332, 463
MalI	GATC	1 cut(s)	384
MboI	GATC	1 cut(s)	382
MboII	GAAGA	4 cut(s)	179, 407, 509, 535
MflI	RGATCY	1 cut(s)	382
MhlI	GDGCHC	2 cut(s)	117, 539
MluCI	AATT	1 cut(s)	550
MlyI	GAGTC	2 cut(s)	340, 376
MnlI	CCTC	6 cut(s)	82, 104, 205, 281, 284, 300
MseI	TTAA	1 cut(s)	186
MslI	CAYNNNNRTG	1 cut(s)	140
MspI	CCGG	2 cut(s)	53, 243
MspR9I	CCNGG	1 cut(s)	70
Mva1269I	GAATGC	1 cut(s)	426
MvaI	CCWGG	1 cut(s)	70
MwoI	GCNNNNNNNGC	4 cut(s)	79, 200, 209, 218
NdeII	GATC	1 cut(s)	382
NlaIII	CATG	1 cut(s)	88
NlaIV	GGNNCC	2 cut(s)	115, 148
NmeAIII	GCCGAG	1 cut(s)	127
NmuCI	GTSAC	1 cut(s)	61
OliI	CACNNNNGTG	1 cut(s)	140
PceI	AGGCCT	1 cut(s)	212
PcsI	WCGNNNNNNNCGW	1 cut(s)	33
PctI	GAATGC	1 cut(s)	426
PkrI	GCNGC	1 cut(s)	317
PleI	GAGTC	2 cut(s)	340, 375
PpsI	GAGTC	2 cut(s)	340, 375
Psp6I	CCWGG	1 cut(s)	68
PspGI	CCWGG	1 cut(s)	68
PspN4I	GGNNCC	2 cut(s)	115, 148
PspOMI	GGGCCC	1 cut(s)	113
PspPI	GGNCC	4 cut(s)	91, 113, 114, 147
PsuI	RGATCY	1 cut(s)	382
RsaI	GTAC	2 cut(s)	377, 482
RsaNI	GTAC	2 cut(s)	376, 481
RseI	CAYNNNNRTG	1 cut(s)	140
SaqAI	TTAA	1 cut(s)	186
SatI	GCNGC	1 cut(s)	316
Sau3AI	GATC	1 cut(s)	382
Sau96I	GGNCC	4 cut(s)	91, 113, 114, 147
SchI	GAGTC	2 cut(s)	340, 376
ScrFI	CCNGG	1 cut(s)	70
SduI	GDGCHC	2 cut(s)	117, 539
SfiI	GGCCNNNNNGGCC	2 cut(s)	200, 209
SmiMI	CAYNNNNRTG	1 cut(s)	140
SmlI	CTYRAG	2 cut(s)	74, 411
SmoI	CTYRAG	2 cut(s)	74, 411
Sse9I	AATT	1 cut(s)	550
SseBI	AGGCCT	1 cut(s)	212
SsiI	CCGC	1 cut(s)	285
SspMI	CTAG	2 cut(s)	306, 447
StuI	AGGCCT	1 cut(s)	212
StyD4I	CCNGG	1 cut(s)	68
TaaI	ACNGT	1 cut(s)	139
TaiI	ACGT	2 cut(s)	30, 63
TaqI	TCGA	2 cut(s)	123, 344
TasI	AATT	1 cut(s)	550
TatI	WGTACW	1 cut(s)	480
Tru1I	TTAA	1 cut(s)	186
Tru9I	TTAA	1 cut(s)	186
TscAI	CASTG	2 cut(s)	266, 499
TseFI	GTSAC	1 cut(s)	61
TseI	GCWGC	1 cut(s)	315
Tsp45I	GTSAC	1 cut(s)	61
TspDTI	ATGAA	1 cut(s)	408
TspGWI	ACGGA	1 cut(s)	25
TspRI	CASTG	2 cut(s)	266, 499
VneI	GTGCAC	1 cut(s)	535
XspI	CTAG	2 cut(s)	306, 447

Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.